3P7B

p38 inhibitor-bound


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 293.0
Details 10-20% PEG4000 0.1M cacodylic acid, 50 mM n-octyl-beta-D-glucoside, VAPOR DIFFUSION, SITTING DROP, temperature 293K, pH 6.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 68.4 α = 90
b = 70.99 β = 90
c = 75.55 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2004-06-03
Diffraction Radiation
Monochromator Protocol
SAGITALLY FOCUSED Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X4A 0.97901 NSLS X4A

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.9 28.53 90.2 -- -- -- 4.6 26581 26557 0.0 0.0 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 1.9 28.53 -- -- 29642 23693 2042 87.43 -- 0.22373 0.22026 0.26481 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.905 1.954 -- 164 1600 0.277 0.355 -- 83.13
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.624
Anisotropic B[1][1] 1.16
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.15
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.3
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.897
r_scbond_it 3.18
r_mcbond_it 1.297
r_dihedral_angle_3_deg 19.737
r_dihedral_angle_2_deg 36.621
r_dihedral_angle_4_deg 19.59
r_chiral_restr 0.14
r_scangle_it 4.78
r_bond_refined_d 0.023
r_gen_planes_refined 0.009
r_dihedral_angle_1_deg 6.465
r_mcangle_it 2.241
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2683
Nucleic Acid Atoms 0
Heterogen Atoms 53
Solvent Atoms 74

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0110
CNS refinement
HKL-2000 data reduction
HKL-2000 data scaling
CNS phasing
HKL-2000 data collection

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